The Systems Biology Graphical Notation

    Research output: Contribution to journalArticle

    1 Citation (Scopus)

    Abstract

    Circuit diagrams and Unified Modeling Language diagrams are just two examples of standard visual languages that help accelerate work by promoting regularity, removing ambiguity and enabling software tool support for communication of complex information. Ironically, despite having one of the highest ratios of graphical to textual information, biology still lacks standard graphical notations. The recent deluge of biological knowledge makes addressing this deficit a pressing concern. Toward this goal, we present the Systems Biology Graphical Notation (SBGN), a visual language developed by a community of biochemists, modelers and computer scientists. SBGN consists of three complementary languages: process diagram, entity relationship diagram and activity flow diagram. Together they enable scientists to represent networks of biochemical interactions in a standard, unambiguous way. We believe that SBGN will foster efficient and accurate representation, visualization, storage, exchange and reuse of information on all kinds of biological knowledge, from gene regulation, to metabolism, to cellular signaling.
    LanguageEnglish
    Pages735-741
    JournalNature Biotechnology
    Volume27
    DOIs
    Publication statusPublished - Sep 2009

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    Visual languages
    Cell signaling
    Unified Modeling Language
    Metabolism
    Gene expression
    Visualization
    Networks (circuits)
    Communication
    Systems Biology

    Cite this

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    title = "The Systems Biology Graphical Notation",
    abstract = "Circuit diagrams and Unified Modeling Language diagrams are just two examples of standard visual languages that help accelerate work by promoting regularity, removing ambiguity and enabling software tool support for communication of complex information. Ironically, despite having one of the highest ratios of graphical to textual information, biology still lacks standard graphical notations. The recent deluge of biological knowledge makes addressing this deficit a pressing concern. Toward this goal, we present the Systems Biology Graphical Notation (SBGN), a visual language developed by a community of biochemists, modelers and computer scientists. SBGN consists of three complementary languages: process diagram, entity relationship diagram and activity flow diagram. Together they enable scientists to represent networks of biochemical interactions in a standard, unambiguous way. We believe that SBGN will foster efficient and accurate representation, visualization, storage, exchange and reuse of information on all kinds of biological knowledge, from gene regulation, to metabolism, to cellular signaling.",
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    The Systems Biology Graphical Notation. / Watterson, Steven.

    In: Nature Biotechnology, Vol. 27, 09.2009, p. 735-741.

    Research output: Contribution to journalArticle

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